Luis Aparicio's S-STEM Blog

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~Luis

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Friday, March 31, 2017

“Having had the green light to run all protocols and using
all four bacteria cultures I did exactly that and was left drained at the end
of that day” – Thursday, March 23rd

This week was dedicated to analyzing the products of the DNA
extraction methods using microvolume
UV-Vis spectrophotometer technology. The results are on the tables below and
can be overwhelming to look at.

There
were four culture broths used, each with a different color cap:

-Green
(g)

-White
(w)

-Red
(r)

-Blue
(b).

There
was a total of six protocols:

-Boiling
(BP)

-TE
Boiling (tBP)

-TE
Freeze and Thaw (tFT)

-Lysis
(L)

-Meat
Tenderizer (MT)

-Commercial
Kit (C)

Each
culture was used to conduct all of the protocols to determine which protocol was
the best. Given that there were four cultures, the experiment was conducted four
different times technically. Here are the results:

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

BPg(Blank)

BPg

33.7

ng/µl

1.48

DNA

50

BPg

33.3

ng/µl

1.48

DNA

50

BPg

34

ng/µl

1.49

DNA

50

BPg

34

ng/µl

1.49

DNA

50

BPg

33.7

ng/µl

1.49

DNA

50

BPw(Reblank)

BPw

31.2

ng/µl

1.52

DNA

50

BPw

30.5

ng/µl

1.49

DNA

50

BPw

35.5

ng/µl

1.4

DNA

50

BPw

30.8

ng/µl

1.49

DNA

50

BPw

31.9

ng/µl

1.52

DNA

50

BPr(Reblank)

BPr

77.2

ng/µl

1.57

DNA

50

BPr

76.7

ng/µl

1.56

DNA

50

BPr

77.2

ng/µl

1.57

DNA

50

BPr

76.7

ng/µl

1.57

DNA

50

BPr

80.2

ng/µl

1.57

DNA

50

PBb(Reblank)

BPb

56.6

ng/µl

1.6

DNA

50

BPb

57.7

ng/µl

1.59

DNA

50

BPb

59

ng/µl

1.61

DNA

50

BPb

57.8

ng/µl

1.58

DNA

50

BPb

57.4

ng/µl

1.61

DNA

50

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

tBPg(Blank)

tBPg

885.5

ng/µl

1.43

DNA

50

tBPg

883.3

ng/µl

1.44

DNA

50

tBPg

968

ng/µl

1.43

DNA

50

tBPg

885

ng/µl

1.44

DNA

50

tBPg

873.8

ng/µl

1.44

DNA

50

tBPw(Reblank)

tBPw

933.8

ng/µl

1.5

DNA

50

tBPw

956.7

ng/µl

1.5

DNA

50

tBPw

949.1

ng/µl

1.5

DNA

50

tBPw

954.4

ng/µl

1.5

DNA

50

tBPw

948.2

ng/µl

1.49

DNA

50

tBPr(Reblank)

tBPr

963

ng/µl

1.56

DNA

50

tBPr

963.8

ng/µl

1.56

DNA

50

tBPr

967.9

ng/µl

1.56

DNA

50

tBPr

968.6

ng/µl

1.56

DNA

50

tBPr

971.5

ng/µl

1.55

DNA

50

tBPb(Reblank)

tBPb

977.2

ng/µl

1.58

DNA

50

tBPb

997.7

ng/µl

1.57

DNA

50

tBPb

987.7

ng/µl

1.57

DNA

50

tBPb

966.8

ng/µl

1.57

DNA

50

tBPb

993.3

ng/µl

1.57

DNA

50

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

tFTg(Blank)

tFTg

212.4

ng/µl

1.62

DNA

50

tFTg

212.1

ng/µl

1.63

DNA

50

tFTg

206.4

ng/µl

1.58

DNA

50

tFTg

209.1

ng/µl

1.64

DNA

50

tFTg

217.5

ng/µl

1.64

DNA

50

tFTw(Reblank)

tFTw

253.2

ng/µl

1.54

DNA

50

tFTw

249.3

ng/µl

1.54

DNA

50

tFTw

253.2

ng/µl

1.54

DNA

50

tFTw

256.1

ng/µl

1.54

DNA

50

tFTw

254.5

ng/µl

1.54

DNA

50

tFTr(Reblank)

tFTr

170.8

ng/µl

1.53

DNA

50

tFTr

171.8

ng/µl

1.53

DNA

50

tFTr

174.2

ng/µl

1.54

DNA

50

tFTr

171.7

ng/µl

1.53

DNA

50

tFTr

167.6

ng/µl

1.49

DNA

50

tFTb(Reblank)

tFTb

172.6

ng/µl

1.58

DNA

50

tFTb

176.9

ng/µl

1.58

DNA

50

tFTb

175.2

ng/µl

1.57

DNA

50

tFTb

173.8

ng/µl

1.56

DNA

50

tFTb

175.2

ng/µl

1.57

DNA

50

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

Lg(Blank)

Lg

258.6

ng/µl

1.68

DNA

50

Lg

356.1

ng/µl

1.71

DNA

50

Lg

186.4

ng/µl

1.58

DNA

50

Lg

301.7

ng/µl

1.63

DNA

50

Lg

112.8

ng/µl

1.69

DNA

50

Lw(Reblank)

Lw

261.9

ng/µl

1.57

DNA

50

Lw

263.2

ng/µl

1.57

DNA

50

Lw

317.3

ng/µl

1.57

DNA

50

Lw

302.6

ng/µl

1.52

DNA

50

Lw

263.2

ng/µl

1.58

DNA

50

Lw(Reblank)

Lr

291.3

ng/µl

1.44

DNA

50

Lr

288

ng/µl

1.44

DNA

50

Lr

117.1

ng/µl

1.43

DNA

50

Lr

109.6

ng/µl

1.44

DNA

50

Lr

289.8

ng/µl

1.43

DNA

50

Lb(Reblank)

Lb

324.2

ng/µl

1.55

DNA

50

Lb

239.3

ng/µl

1.55

DNA

50

Lb

317.8

ng/µl

1.53

DNA

50

Lb

339.3

ng/µl

1.54

DNA

50

Lb

354.1

ng/µl

1.55

DNA

50

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

MTg(Blank)

MTg

200.8

ng/µl

1.68

DNA

50

MTg

209.8

ng/µl

1.68

DNA

50

MTg

203

ng/µl

1.66

DNA

50

MTg

203.4

ng/µl

1.68

DNA

50

MTg

202.5

ng/µl

1.68

DNA

50

MTg(Reblank)

MTw

205.2

ng/µl

1.54

DNA

50

MTw

206.6

ng/µl

1.53

DNA

50

MTw

207.8

ng/µl

1.54

DNA

50

MTw

207.2

ng/µl

1.54

DNA

50

MTw

255.3

ng/µl

1.52

DNA

50

MTr(Reblank)

MTr

107.5

ng/µl

1.51

DNA

50

MTr

117.5

ng/µl

1.41

DNA

50

MTr

116.7

ng/µl

1.53

DNA

50

MTr

106.6

ng/µl

1.59

DNA

50

MTr

113.4

ng/µl

1.53

DNA

50

MTb(Reblank)

MTb

127.6

ng/µl

1.55

DNA

50

MTb

131.4

ng/µl

1.56

DNA

50

MTb

127.6

ng/µl

1.55

DNA

50

MTb

131.1

ng/µl

1.56

DNA

50

MTb

132.4

ng/µl

1.55

DNA

50

MTb

152.1

ng/µl

1.54

DNA

50

Sample ID

Nucleic Acid

Unit

260/280

Sample Type

Factor

Cg(Blank)

Cg

1786.8

ng/µl

1.5

DNA

50

Cg

1810.2

ng/µl

1.45

DNA

50

Cg

1895.7

ng/µl

1.43

DNA

50

Cg

1685

ng/µl

1.44

DNA

50

Cg

1778.2

ng/µl

1.42

DNA

50

Cw(Reblank)

Cw

514

ng/µl

1.46

DNA

50

Cw

516.5

ng/µl

1.46

DNA

50

Cw

519.9

ng/µl

1.46

DNA

50

Cw

515.6

ng/µl

1.45

DNA

50

Cw

521.2

ng/µl

1.44

DNA

50

Cr(Reblank)

Cr

309.9

ng/µl

1.57

DNA

50

Cr

327.8

ng/µl

1.57

DNA

50

Cr

316.4

ng/µl

1.57

DNA

50

Cr

313.2

ng/µl

1.57

DNA

50

Cr

319.6

ng/µl

1.56

DNA

50

Cb(Reblank)

Cb

357.1

ng/µl

1.55

DNA

50

Cb

345

ng/µl

1.56

DNA

50

Cb

345.2

ng/µl

1.56

DNA

50

Cb

344.2

ng/µl

1.56

DNA

50

Cb

348.2

ng/µl

1.56

DNA

50

Next
week I’ll work on obtaining averages and plotting the data on graphs which will
perhaps make it easier to see what’s happening but from what I can tell the TE
Boiling protocols significantly yielded more DNA than any other protocol
competing against it. Which is impressive because it’s one of the less
elaborate methods to follow.

There
are a number of variables that I would like to mention but I’ll do that next
week. Until next time, Luis.